Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/4d622e2956850ec5a5d0d4cf8bef58/positive_somatic_control_1.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/95/f21d5b41d978e1118b5cf93d5fbf60/positive_somatic_control_1.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/4d622e2956850ec5a5d0d4cf8bef58/positive_somatic_control_1.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/44/421d68f4068722fff489956818e827/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/44/421d68f4068722fff489956818e827/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/95/f21d5b41d978e1118b5cf93d5fbf60/positive_somatic_control_1.snv_indel.tnseq.snv.vcf.gz
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
ls: positive_somatic_control_1.snv_indel.merged.vcf.gz.csi: No such file or directory